Locus 1938

Sequence ID X_DroMel_CAF1
Location 5,310,366 – 5,310,461
Length 95
Max. P 0.730105
window3148

overview

Window 8

Location 5,310,366 – 5,310,461
Length 95
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.78
Mean single sequence MFE -25.62
Consensus MFE -15.18
Energy contribution -15.10
Covariance contribution -0.08
Combinations/Pair 1.24
Mean z-score -1.86
Structure conservation index 0.59
SVM decision value 0.42
SVM RNA-class probability 0.730105
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5310366 95 - 22224390
CAAUUUAUUAAUAUUUU-CAUGGCAUUUAAGUGCCGUGGGUG--UACUUUCCAUUU----------------------CGUUAAGUGUAAAUAAGCACUGUGAUGUCGUAAACCACACAG
................(-((((((((....)))))))))(((--(..(((.(....----------------------((((((((((......))))).)))))..).)))..)))).. ( -22.40)
>DroSec_CAF1 47123 95 - 1
CAAUUUAUUAAUAUUUU-CAUGGCAUUUGAGUGCCGUGGGUG--UACUUUCCAUUU----------------------CGUUAAGUGUAAAUAAGCACUGCGAUGUCGUAAACUACACAG
................(-((((((((....)))))))))(((--((.((((.((.(----------------------(((..(((((......))))))))).)).).))).))))).. ( -26.40)
>DroSim_CAF1 38606 95 - 1
CAAUUUAUUAAUAUUUU-CAUGGCAUUUGAGUGCCGUGGGUG--UACUUUCCAUUU----------------------CGUUAAGUGUAAAUAAGCACUGCGAUGUCGUAAACUACACAG
................(-((((((((....)))))))))(((--((.((((.((.(----------------------(((..(((((......))))))))).)).).))).))))).. ( -26.40)
>DroEre_CAF1 49786 109 - 1
CAAUUUAUUAAUAUUUU-CAUGGCAUUAAAGUGCUGUGGGUG--UACUUUGCAUUUGAGUGCCAGUAAUCAA--------UUCGUUAUAAAUAAACACUGUGCUGUCGUAAACUACGCAG
...((((((........-..(((((((.((((((...((...--..))..)))))).)))))))(((((...--------...))))).))))))..(((((..((.....))..))))) ( -24.10)
>DroYak_CAF1 49550 120 - 1
CAAUUUAUUAAUAUUUUCCAUGGCAUUUCAGUGCCUUGGCUGUAUACUUUGCAUUUGAGUGCCAGUACUUUAGGUGUUCUUUAGGUGUAAAUAAACACUGUGGUGUCGUAAAUCGCGCAG
..........((((...(((.(((((....))))).)))..))))....(((....(((..((.........))..)))....(((((......)))))(((((.......)))))))). ( -28.80)
>consensus
CAAUUUAUUAAUAUUUU_CAUGGCAUUUAAGUGCCGUGGGUG__UACUUUCCAUUU______________________CGUUAAGUGUAAAUAAGCACUGUGAUGUCGUAAACUACACAG
...((((((.((((((..((((((((....))))))))((..........))..............................)))))).))))))..(((((..((.....))..))))) (-15.18 = -15.10 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:17 2006